WO2015081114A3 - Libraries of nucleic acids and methods for making the same - Google Patents

Libraries of nucleic acids and methods for making the same Download PDF

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Publication number
WO2015081114A3
WO2015081114A3 PCT/US2014/067444 US2014067444W WO2015081114A3 WO 2015081114 A3 WO2015081114 A3 WO 2015081114A3 US 2014067444 W US2014067444 W US 2014067444W WO 2015081114 A3 WO2015081114 A3 WO 2015081114A3
Authority
WO
WIPO (PCT)
Prior art keywords
libraries
methods
nucleic acids
making
same
Prior art date
Application number
PCT/US2014/067444
Other languages
French (fr)
Other versions
WO2015081114A2 (en
Inventor
Joseph Jacobson
Daniel Schindler
Ishtiaq SAAEM
Nicholas James GUIDO
Original Assignee
Gen9, Inc.
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Priority to CN201480074047.0A priority Critical patent/CN105934541B/en
Priority to EP21168127.5A priority patent/EP3943646A1/en
Priority to US15/039,620 priority patent/US20170175110A1/en
Priority to AU2014354852A priority patent/AU2014354852B2/en
Priority to CA2931989A priority patent/CA2931989C/en
Priority to EP14866712.4A priority patent/EP3074554B1/en
Application filed by Gen9, Inc. filed Critical Gen9, Inc.
Publication of WO2015081114A2 publication Critical patent/WO2015081114A2/en
Publication of WO2015081114A3 publication Critical patent/WO2015081114A3/en
Priority to IL245909A priority patent/IL245909B/en
Priority to AU2019264596A priority patent/AU2019264596A1/en
Priority to US17/083,033 priority patent/US20210040477A1/en
Priority to AU2022202347A priority patent/AU2022202347A1/en

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B40/00—Libraries per se, e.g. arrays, mixtures
    • C40B40/04—Libraries containing only organic compounds
    • C40B40/06—Libraries containing nucleotides or polynucleotides, or derivatives thereof
    • C40B40/08—Libraries containing RNA or DNA which encodes proteins, e.g. gene libraries
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C12N15/1093—General methods of preparing gene libraries, not provided for in other subgroups
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/102—Mutagenizing nucleic acids
    • C12N15/1027—Mutagenizing nucleic acids by DNA shuffling, e.g. RSR, STEP, RPR
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/102—Mutagenizing nucleic acids
    • C12N15/1031—Mutagenizing nucleic acids mutagenesis by gene assembly, e.g. assembly by oligonucleotide extension PCR
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/66—General methods for inserting a gene into a vector to form a recombinant vector using cleavage and ligation; Use of non-functional linkers or adaptors, e.g. linkers containing the sequence for a restriction endonuclease

Abstract

Methods for designing and producing non-random libraries of nucleic acids are presented. In particular, synthesis of nonrandom libraries by multiplexed polynucleotide synthesis is utilized. Each library member may encode a promoter, ribosomal binding site and polypeptide.
PCT/US2014/067444 2013-11-27 2014-11-25 Libraries of nucleic acids and methods for making the same WO2015081114A2 (en)

Priority Applications (10)

Application Number Priority Date Filing Date Title
EP21168127.5A EP3943646A1 (en) 2013-11-27 2014-11-25 Libraries of nucleic acids and methods for making the same
US15/039,620 US20170175110A1 (en) 2013-11-27 2014-11-25 Libraries of Nucleic Acids and Methods for Making the Same
AU2014354852A AU2014354852B2 (en) 2013-11-27 2014-11-25 Libraries of nucleic acids and methods for making the same
CA2931989A CA2931989C (en) 2013-11-27 2014-11-25 Libraries of nucleic acids and methods for making the same
EP14866712.4A EP3074554B1 (en) 2013-11-27 2014-11-25 Libraries of nucleic acids and methods for making the same
CN201480074047.0A CN105934541B (en) 2013-11-27 2014-11-25 Nucleic acid library and its manufacturing method
IL245909A IL245909B (en) 2013-11-27 2016-05-29 Libraries of nucleic acids and methods for making the same
AU2019264596A AU2019264596A1 (en) 2013-11-27 2019-11-13 Libraries of Nucleic Acids and Methods for Making the Same
US17/083,033 US20210040477A1 (en) 2013-11-27 2020-10-28 Libraries of nucleic acids and methods for making the same
AU2022202347A AU2022202347A1 (en) 2013-11-27 2022-04-07 Libraries of Nucleic Acids and Methods for Making the Same

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201361909537P 2013-11-27 2013-11-27
US61/909,537 2013-11-27

Related Child Applications (2)

Application Number Title Priority Date Filing Date
US15/039,620 A-371-Of-International US20170175110A1 (en) 2013-11-27 2014-11-25 Libraries of Nucleic Acids and Methods for Making the Same
US17/083,033 Continuation US20210040477A1 (en) 2013-11-27 2020-10-28 Libraries of nucleic acids and methods for making the same

Publications (2)

Publication Number Publication Date
WO2015081114A2 WO2015081114A2 (en) 2015-06-04
WO2015081114A3 true WO2015081114A3 (en) 2015-11-12

Family

ID=53199724

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2014/067444 WO2015081114A2 (en) 2013-11-27 2014-11-25 Libraries of nucleic acids and methods for making the same

Country Status (7)

Country Link
US (2) US20170175110A1 (en)
EP (2) EP3074554B1 (en)
CN (2) CN110219055A (en)
AU (3) AU2014354852B2 (en)
CA (1) CA2931989C (en)
IL (1) IL245909B (en)
WO (1) WO2015081114A2 (en)

Cited By (1)

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US11845054B2 (en) 2010-11-12 2023-12-19 Gen9, Inc. Methods and devices for nucleic acids synthesis

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US8053191B2 (en) 2006-08-31 2011-11-08 Westend Asset Clearinghouse Company, Llc Iterative nucleic acid assembly using activation of vector-encoded traits
US10457935B2 (en) 2010-11-12 2019-10-29 Gen9, Inc. Protein arrays and methods of using and making the same
ES2737957T3 (en) 2011-08-26 2020-01-17 Gen9 Inc Compositions and methods for high fidelity nucleic acid assembly
US9150853B2 (en) 2012-03-21 2015-10-06 Gen9, Inc. Methods for screening proteins using DNA encoded chemical libraries as templates for enzyme catalysis
CN104603286B (en) 2012-04-24 2020-07-31 Gen9股份有限公司 Method for sorting nucleic acids and multiplex preparations in vitro cloning
LT2864531T (en) 2012-06-25 2019-03-12 Gen9, Inc. Methods for nucleic acid assembly and high throughput sequencing
ES2943498T3 (en) 2013-08-05 2023-06-13 Twist Bioscience Corp de novo synthesized libraries
WO2016126882A1 (en) 2015-02-04 2016-08-11 Twist Bioscience Corporation Methods and devices for de novo oligonucleic acid assembly
CA2975855A1 (en) 2015-02-04 2016-08-11 Twist Bioscience Corporation Compositions and methods for synthetic gene assembly
US9981239B2 (en) 2015-04-21 2018-05-29 Twist Bioscience Corporation Devices and methods for oligonucleic acid library synthesis
GB2557529A (en) * 2015-09-18 2018-06-20 Twist Bioscience Corp Oligonucleic acid variant libraries and synthesis thereof
WO2017053450A1 (en) 2015-09-22 2017-03-30 Twist Bioscience Corporation Flexible substrates for nucleic acid synthesis
WO2017095958A1 (en) 2015-12-01 2017-06-08 Twist Bioscience Corporation Functionalized surfaces and preparation thereof
US9988624B2 (en) 2015-12-07 2018-06-05 Zymergen Inc. Microbial strain improvement by a HTP genomic engineering platform
US11208649B2 (en) 2015-12-07 2021-12-28 Zymergen Inc. HTP genomic engineering platform
CN109996876A (en) * 2016-08-22 2019-07-09 特韦斯特生物科学公司 The nucleic acid library of de novo formation
WO2018057526A2 (en) 2016-09-21 2018-03-29 Twist Bioscience Corporation Nucleic acid based data storage
AU2017378492B2 (en) 2016-12-16 2022-06-16 Twist Bioscience Corporation Variant libraries of the immunological synapse and synthesis thereof
US11550939B2 (en) 2017-02-22 2023-01-10 Twist Bioscience Corporation Nucleic acid based data storage using enzymatic bioencryption
CA3056388A1 (en) 2017-03-15 2018-09-20 Twist Bioscience Corporation Variant libraries of the immunological synapse and synthesis thereof
WO2018231864A1 (en) 2017-06-12 2018-12-20 Twist Bioscience Corporation Methods for seamless nucleic acid assembly
WO2018231872A1 (en) 2017-06-12 2018-12-20 Twist Bioscience Corporation Methods for seamless nucleic acid assembly
SG11202002194UA (en) 2017-09-11 2020-04-29 Twist Bioscience Corp Gpcr binding proteins and synthesis thereof
KR20240024357A (en) 2017-10-20 2024-02-23 트위스트 바이오사이언스 코포레이션 Heated nanowells for polynucleotide synthesis
KR20200106067A (en) 2018-01-04 2020-09-10 트위스트 바이오사이언스 코포레이션 DNA-based digital information storage
EP3814497A4 (en) 2018-05-18 2022-03-02 Twist Bioscience Corporation Polynucleotides, reagents, and methods for nucleic acid hybridization
EP3867373A1 (en) * 2018-10-19 2021-08-25 New England Biolabs, Inc. Improved ordered assembly of multiple dna fragments
CN113785057A (en) 2019-02-26 2021-12-10 特韦斯特生物科学公司 Variant nucleic acid libraries for antibody optimization
CA3131689A1 (en) 2019-02-26 2020-09-03 Twist Bioscience Corporation Variant nucleic acid libraries for glp1 receptor
WO2020208234A1 (en) * 2019-04-10 2020-10-15 Ribbon Biolabs Gmbh A library of polynucleotides
AU2020298294A1 (en) 2019-06-21 2022-02-17 Twist Bioscience Corporation Barcode-based nucleic acid sequence assembly
WO2022253277A1 (en) * 2021-06-03 2022-12-08 中国农业大学 Type i-c crispr-cas3 system and application thereof
WO2022267842A1 (en) * 2021-06-21 2022-12-29 Westlake University Disruptions of pdcd1, adora2a, and ctla4 genes and uses thereof
WO2023183948A2 (en) * 2022-03-25 2023-09-28 University Of Maryland, Baltimore County Heteroduplex theromstable ligation assembly (htla) and/or cyclic heteroduplex thermostable ligation assembly (chtla) for generating double-stranded dna fragments with single-stranded sticky ends

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Also Published As

Publication number Publication date
AU2019264596A1 (en) 2019-12-05
AU2014354852B2 (en) 2019-08-15
IL245909A0 (en) 2016-07-31
WO2015081114A2 (en) 2015-06-04
CN110219055A (en) 2019-09-10
CN105934541A (en) 2016-09-07
AU2014354852A1 (en) 2016-06-16
US20210040477A1 (en) 2021-02-11
EP3074554B1 (en) 2021-05-19
US20170175110A1 (en) 2017-06-22
EP3074554A2 (en) 2016-10-05
EP3074554A4 (en) 2017-06-14
IL245909B (en) 2020-07-30
EP3943646A1 (en) 2022-01-26
CA2931989A1 (en) 2015-06-04
AU2022202347A1 (en) 2022-04-28
CA2931989C (en) 2023-04-04
CN105934541B (en) 2019-07-12

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